Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3382237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 17
Found at i:1775259 original size:42 final size:42
Alignment explanation
Indices: 1775200--1775322 Score: 176
Period size: 42 Copynumber: 2.9 Consensus size: 42
1775190 GTGAATCGGG
*
1775200 CTCTTGAACGGTGGGAGGGACC-CATTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTC-TTGAACGATGACAGGAGC
* *
1775242 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGAGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGAGC
* * *
1775284 CTCTTGAACGATAGGAGGCACCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGG
1775323 TGAATCGGGC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 71 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.36, T:0.19
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGAGC
Found at i:1775624 original size:21 final size:21
Alignment explanation
Indices: 1775600--1775649 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1775590 TGAAACAATC
* *
1775600 TCACGTAGAGCGGCTACCTCA
1 TCACGTAGAGCAGATACCTCA
* *
1775621 TCACGTAAAGTAGATACCTCA
1 TCACGTAGAGCAGATACCTCA
1775642 TCACGTAG
1 TCACGTAG
1775650 CGCACCATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (21 bp):
TCACGTAGAGCAGATACCTCA
Found at i:1775682 original size:63 final size:61
Alignment explanation
Indices: 1775615--1775774 Score: 167
Period size: 63 Copynumber: 2.5 Consensus size: 61
1775605 TAGAGCGGCT
* *
1775615 ACCTCATCACGTAAAGTAGATACCTCATCACGTAGCGCACCATTGTCATCGCGTAAAACATCC
1 ACCTCATCACGTAAAG-ACATACCTCATCACGTA-CGCACCATTGTCATCACGTAAAACATCC
* * * * ** *
1775678 ACCTCACCACGTAAAGACCATACCTCATCACGCCATGCACCATTGTCTTCACGTAAAGTATCG
1 ACCTCATCACGTAAAGA-CATACCTCATCACG-TACGCACCATTGTCATCACGTAAAACATCC
* **
1775741 ACCTCATGACGTAAAGCACCGACCTCATCACGTA
1 ACCTCATCACGTAAAG-ACATACCTCATCACGTA
1775775 ACTCATCCCG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
62 2 0.03
63 76 0.95
64 2 0.03
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (61 bp):
ACCTCATCACGTAAAGACATACCTCATCACGTACGCACCATTGTCATCACGTAAAACATCC
Found at i:1775754 original size:21 final size:21
Alignment explanation
Indices: 1775726--1775775 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
1775716 ACCATTGTCT
* *
1775726 TCACGTAAAGTATCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
1775747 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
1775768 TCACGTAA
1 TCACGTAA
1775776 CTCATCCCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:1777536 original size:20 final size:21
Alignment explanation
Indices: 1777511--1777549 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1777501 TCGCGTTGCG
*
1777511 ATTTTCTCGTTGC-AATTTTC
1 ATTTTCGCGTTGCGAATTTTC
1777531 ATTTTCGCGTTGCGAATTT
1 ATTTTCGCGTTGCGAATTT
1777550 AAGTTTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (21 bp):
ATTTTCGCGTTGCGAATTTTC
Found at i:1777917 original size:22 final size:22
Alignment explanation
Indices: 1777888--1777945 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
1777878 GATGGAGAAA
*
1777888 GACGGATTTTGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
1777910 GATGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1777932 GACGGATGTCGCCG
1 GACGGATTTCGCCG
1777946 TAGAGAGTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.16, G:0.45, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1778123 original size:20 final size:20
Alignment explanation
Indices: 1778098--1778309 Score: 149
Period size: 20 Copynumber: 10.6 Consensus size: 20
1778088 TAAACAAGCT
*
1778098 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACATTCGCG
* * *
1778118 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACATTCGCG
* * *
1778138 TTGCAAATTTGAAATTCAGTG
1 TTGCGAATTTGACATTC-GCG
*
1778159 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACATTC-GCG
1778179 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--ATTCGCG
*
1778199 TTGCGAATTTGAC-TTCAGTG
1 TTGCGAATTTGACATTC-GCG
*
1778219 TTGCGAATTTGAC-TTCTCTG
1 TTGCGAATTTGACATTCGC-G
1778239 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--ATTCGCG
1778259 TTGCG-ATTT-ACAGATTCGCG
1 TTGCGAATTTGAC--ATTCGCG
1778279 TTGCG-ATTT-ACAAATTCGCG
1 TTGCGAATTTGAC--ATTCGCG
1778299 TTGCGAATTTG
1 TTGCGAATTTG
1778310 TAAACTGGGC
Statistics
Matches: 164, Mismatches: 15, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
18 4 0.02
19 11 0.07
20 118 0.72
21 29 0.18
22 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.40
Consensus pattern (20 bp):
TTGCGAATTTGACATTCGCG
Found at i:1778234 original size:60 final size:61
Alignment explanation
Indices: 1778137--1778264 Score: 222
Period size: 60 Copynumber: 2.1 Consensus size: 61
1778127 TGACTTTTGT
* *
1778137 GTTGCAAATTTGAAATTCAGTGTTGCGAATTTGACTTCTGTGTTGCGATTTACAGATTCGC
1 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTTCTCTGTTGCGATTTACAGATTCGC
*
1778198 GTTGCGAATTTG-ACTTCAGTGTTGCGAATTTGACTTCTCTGTTGCGATTTACAGATTCGC
1 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTTCTCTGTTGCGATTTACAGATTCGC
1778258 GTTGCGA
1 GTTGCGA
1778265 TTTACAGATT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
60 53 0.83
61 11 0.17
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.39
Consensus pattern (61 bp):
GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTTCTCTGTTGCGATTTACAGATTCGC
Found at i:1778304 original size:60 final size:60
Alignment explanation
Indices: 1778098--1778264 Score: 189
Period size: 60 Copynumber: 2.8 Consensus size: 60
1778088 TAAACAAGCT
* * * * * *
1778098 TTGCGAATTTGACTTTCGC-GTTGCGAATTTGAC--TTTTGTGTTGCAAATTTGAAATTCAGTG
1 TTGCGAATTTGAC-TTCGCTGTTGCG-ATTT-ACAGATTCGCGTTGCGAATTTG-ACTTCAGCG
*
1778159 TTGCGAATTTGACTTCTG-TGTTGCGATTTACAGATTCGCGTTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTC-GCTGTTGCGATTTACAGATTCGCGTTGCGAATTTGACTTCAGCG
*
1778219 TTGCGAATTTGACTTCTCTGTTGCGATTTACAGATTCGCGTTGCGA
1 TTGCGAATTTGACTTCGCTGTTGCGATTTACAGATTCGCGTTGCGA
1778265 TTTACAGATT
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
59 2 0.02
60 59 0.62
61 34 0.36
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (60 bp):
TTGCGAATTTGACTTCGCTGTTGCGATTTACAGATTCGCGTTGCGAATTTGACTTCAGCG
Found at i:1778324 original size:40 final size:41
Alignment explanation
Indices: 1778240--1778350 Score: 93
Period size: 40 Copynumber: 2.8 Consensus size: 41
1778230 ACTTCTCTGT
* ** * * *
1778240 TGCGATTTACAGATTCGCGTTGCG-ATTTACAGATTCGCGT
1 TGCGATTTACAAATTCGCGTTGCGAATTTGTAAACTCGCGC
*
1778280 TGCGATTTACAAATTCGCGTTGCGAATTTGTAAACT-GGGC
1 TGCGATTTACAAATTCGCGTTGCGAATTTGTAAACTCGCGC
* ** *
1778320 TGCGAAATT-GGAGTTCGCGTTGCGAATTTGT
1 TGCG-ATTTACAAATTCGCGTTGCGAATTTGT
1778351 TGTTCATTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
40 48 0.83
41 10 0.17
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (41 bp):
TGCGATTTACAAATTCGCGTTGCGAATTTGTAAACTCGCGC
Found at i:1781245 original size:32 final size:32
Alignment explanation
Indices: 1781208--1781269 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
1781198 TTCATATAAT
1781208 TTCTAAATTTGACATCC-AAAAATATTTTTTTC
1 TTCTAAATTTGACA-CCTAAAAATATTTTTTTC
*
1781240 TTCTAAATTTGACACCTTAAAATATTTTTT
1 TTCTAAATTTGACACCTAAAAATATTTTTT
1781270 AGGTTCACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.48
Consensus pattern (32 bp):
TTCTAAATTTGACACCTAAAAATATTTTTTTC
Found at i:1783175 original size:21 final size:21
Alignment explanation
Indices: 1783103--1783176 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
1783093 AGTATGTTTT
* **
1783103 GGATCGATCCCTTG-TAAAAA
1 GGATCGATCCCTCGATGGAAA
*
1783123 GGATCGATCCATCGA-GGAAAA
1 GGATCGATCCCTCGATGG-AAA
1783144 GGATCGATCCCTCGATGGAAA
1 GGATCGATCCCTCGATGGAAA
1783165 GGATCGATCCCT
1 GGATCGATCCCT
1783177 TGAGCATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.26
21 32 0.70
22 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (21 bp):
GGATCGATCCCTCGATGGAAA
Found at i:1784027 original size:23 final size:21
Alignment explanation
Indices: 1783994--1784061 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
1783984 GCGCCATATA
* *
1783994 AAATGTACCGAAGGACCTCAT
1 AAATGTCCCGAAGGACCACAT
1784015 AGAACTGTCCCGAAGGACCACAT
1 A-AA-TGTCCCGAAGGACCACAT
* * *
1784038 ATATGTCTCGAAGGACCGCAT
1 AAATGTCCCGAAGGACCACAT
1784059 AAA
1 AAA
1784062 ACCCTCGACT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 19 0.49
22 3 0.08
23 17 0.44
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.18
Consensus pattern (21 bp):
AAATGTCCCGAAGGACCACAT
Found at i:1785244 original size:20 final size:20
Alignment explanation
Indices: 1785206--1785254 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
1785196 CAAATTCAAC
1785206 TATATTCACTTAAACCATCT
1 TATATTCACTTAAACCATCT
*
1785226 TATA-TCACTTGAACACATCAT
1 TATATTCACTTAAAC-CATC-T
*
1785247 AATATTCA
1 TATATTCA
1785255 ATATCTCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 9 0.38
20 8 0.33
21 4 0.17
22 3 0.12
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (20 bp):
TATATTCACTTAAACCATCT
Found at i:1787891 original size:23 final size:23
Alignment explanation
Indices: 1787865--1787929 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
1787855 CAGCTCGTAT
1787865 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
**
1787888 AATTGCACC-AGAGTGCCGCGTAG
1 AATTGCACCGA-AGTGCCATGTAG
* *
1787911 AATTGCACCGTAGTACCAT
1 AATTGCACCGAAGTGCCAT
1787930 ATAATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:1788172 original size:30 final size:30
Alignment explanation
Indices: 1788138--1788206 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
1788128 ACATAATTTG
* *
1788138 TATCACATAGACATATTATTTTCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1788168 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
*
1788198 TAGCACATA
1 TATCACATA
1788207 ACTCATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:1794632 original size:23 final size:23
Alignment explanation
Indices: 1794606--1794674 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1794596 CACCACAGCT
*
1794606 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1794629 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1794652 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1794675 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1794925 original size:30 final size:30
Alignment explanation
Indices: 1794884--1794952 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
1794874 ACATAATTTG
* * *
1794884 TATCACGTAGACATATTATTTTCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1794914 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
1794944 TATCACATA
1 TATCACATA
1794953 ACTCATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:1798888 original size:16 final size:16
Alignment explanation
Indices: 1798867--1798899 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1798857 AAGTGGGTCT
1798867 TGTGCGAAAATCAACC
1 TGTGCGAAAATCAACC
1798883 TGTGCGAAAATCAACC
1 TGTGCGAAAATCAACC
1798899 T
1 T
1798900 TCTTCCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (16 bp):
TGTGCGAAAATCAACC
Found at i:1800555 original size:31 final size:31
Alignment explanation
Indices: 1800517--1800575 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1800507 TTACGTCGAG
1800517 GACCATATTACAAACA-GACTAAATGTTGAGA
1 GACCATATTACAAA-AGGACTAAATGTTGAGA
**
1800548 GACCATATTGTAAAAGGACTAAATGTTG
1 GACCATATTACAAAAGGACTAAATGTTG
1800576 GGGGATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (31 bp):
GACCATATTACAAAAGGACTAAATGTTGAGA
Found at i:1802823 original size:31 final size:31
Alignment explanation
Indices: 1802737--1802845 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
1802727 TAAATACATC
* * * *
1802737 AGGGACCATATTGCAAACGGATTAAACGTTG
1 AGGGATCATATTGCAAACGGACTAAATGTTA
* *
1802768 AGGGA-CTATATTGCAAATGGACTAAATGTTT
1 AGGGATC-ATATTGCAAACGGACTAAATGTTA
** *
1802799 AGGGATCATATTGCAAACAAACTAAATATTA
1 AGGGATCATATTGCAAACGGACTAAATGTTA
**
1802830 AGGGATTGTATTGCAA
1 AGGGATCATATTGCAA
1802846 GTTTTAAAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
30 1 0.02
31 63 0.97
32 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (31 bp):
AGGGATCATATTGCAAACGGACTAAATGTTA
Found at i:1805423 original size:27 final size:28
Alignment explanation
Indices: 1805378--1805435 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
1805368 AGGGGTGCAC
*
1805378 AAAAAATCCGAATATCCGATTTTGCGAA
1 AAAAAATCCGAATATCCGAATTTGCGAA
*
1805406 AAAAATATCCGAA-A-CCGAATTTGGGAA
1 AAAAA-ATCCGAATATCCGAATTTGCGAA
1805433 AAA
1 AAA
1805436 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 6 0.22
29 7 0.26
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGAATTTGCGAA
Found at i:1805533 original size:12 final size:12
Alignment explanation
Indices: 1805518--1805563 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
1805508 CGGTTTTTTT
*
1805518 ACCGGATAAAAA
1 ACCGGTTAAAAA
1805530 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
1805545 ACCGGTTAAAAA
1 ACCGGTTAAAAA
1805557 ACCGGTT
1 ACCGGTT
1805564 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:1805545 original size:15 final size:13
Alignment explanation
Indices: 1805524--1805564 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
1805514 TTTTACCGGA
1805524 TAAAAAACCGGTT
1 TAAAAAACCGGTT
1805537 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
1805551 TAAAAAACCGGTT
1 TAAAAAACCGGTT
1805564 T
1 T
1805565 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:1808000 original size:21 final size:21
Alignment explanation
Indices: 1807976--1808015 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1807966 TTTATTTTAT
1807976 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
1807997 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
1808016 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:1808063 original size:33 final size:33
Alignment explanation
Indices: 1808010--1808108 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1808000 TTTGTTTCAA
1808010 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1808042 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
1808075 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1808108 T
1 T
1808109 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:1808137 original size:13 final size:13
Alignment explanation
Indices: 1808094--1808148 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
1808084 TTGGAAGTAT
1808094 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
1808107 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
1808121 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
1808134 TTAAGTATTTGAA
1 TTAAGTATTTCAA
1808147 TT
1 TT
1808149 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:1808182 original size:14 final size:14
Alignment explanation
Indices: 1808163--1808203 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1808153 GAACTTGAGG
*
1808163 TTTGATGCTTTCTC
1 TTTGATGCTCTCTC
*
1808177 TTTGATTCTCTCTC
1 TTTGATGCTCTCTC
*
1808191 TTTGATTCTCTCT
1 TTTGATGCTCTCT
1808204 TGATTCTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.24, G:0.10, T:0.59
Consensus pattern (14 bp):
TTTGATGCTCTCTC
Found at i:1808200 original size:12 final size:12
Alignment explanation
Indices: 1808173--1808210 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
1808163 TTTGATGCTT
1808173 TCTCTTTGATTCTC
1 TCTCTTTGA-T-TC
1808187 TCTCTTTGATTC
1 TCTCTTTGATTC
1808199 TCTC-TTGATTC
1 TCTCTTTGATTC
1808210 T
1 T
1808211 AGTTGCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.33
12 6 0.25
13 1 0.04
14 9 0.38
ACGTcount: A:0.08, C:0.26, G:0.08, T:0.58
Consensus pattern (12 bp):
TCTCTTTGATTC
Found at i:1808384 original size:21 final size:21
Alignment explanation
Indices: 1808358--1808410 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
1808348 TGGAGCGTGG
1808358 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTTCCTCTCATA
1808379 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTTCCTCTCATA
1808400 GGGAATCGGTT
1 GGGAATCGGTT
1808411 CCCTAAGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (21 bp):
GGGAATCGGTTTCCTCTCATA
Found at i:1808605 original size:15 final size:15
Alignment explanation
Indices: 1808580--1808635 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
1808570 ATCTGGAATA
*
1808580 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
1808595 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
1808610 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
1808627 TTAAAACCG
1 TTAAAACCG
1808636 AAACCAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:1808619 original size:17 final size:18
Alignment explanation
Indices: 1808599--1808632 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1808589 GTTTTTTTAT
1808599 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
1808616 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
1808633 CCGAAACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:1813028 original size:20 final size:21
Alignment explanation
Indices: 1813003--1813054 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1812993 TTTTCCCAAT
*
1813003 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1813023 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1813044 TCGCAATGCGA
1 TCGCAATGCGA
1813055 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1813068 original size:20 final size:19
Alignment explanation
Indices: 1813043--1813157 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 19
1813033 AATTGGGAAA
1813043 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACT-ACT
1813063 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAC-TACT
* *
1813083 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTAC--T
* *
1813104 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACT-ACT
* * *
1813124 TTCGCAACGCGATAATACAT
1 ATCGCAATGCGATACTAC-T
1813144 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1813158 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.06
20 46 0.59
21 25 0.32
22 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (19 bp):
ATCGCAATGCGATACTACT
Found at i:1813108 original size:41 final size:41
Alignment explanation
Indices: 1813063--1813157 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
1813053 GATACTGACT
* *
1813063 ATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
* * * *
1813104 ATCGCAACGAGATACTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
1813145 ATCGCAATGCGAT
1 ATCGCAATGCGAT
1813158 TTTCAAAGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:1813353 original size:22 final size:22
Alignment explanation
Indices: 1813325--1813368 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1813315 CACTCTCTCA
1813325 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1813347 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1813369 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1813686 original size:20 final size:20
Alignment explanation
Indices: 1813632--1813690 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1813622 GCGATTCTCT
**
1813632 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
1813652 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
1813672 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
1813691 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1813881 original size:25 final size:24
Alignment explanation
Indices: 1813827--1813881 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1813817 TGTTTATTAT
* *
1813827 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1813851 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1813877 TGTTT
1 TGTTT
1813882 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1815033 original size:18 final size:18
Alignment explanation
Indices: 1815008--1815049 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1814998 ACTTCGGGAA
*
1815008 CCATCACCTCGCCCAGAG
1 CCATCACCTCACCCAGAG
*
1815026 CTATCACCTCACCCAGAG
1 CCATCACCTCACCCAGAG
1815044 CCATCA
1 CCATCA
1815050 TCTGATCGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.48, G:0.12, T:0.14
Consensus pattern (18 bp):
CCATCACCTCACCCAGAG
Found at i:1815565 original size:20 final size:19
Alignment explanation
Indices: 1815542--1815651 Score: 72
Period size: 19 Copynumber: 6.1 Consensus size: 19
1815532 AGCAACACGA
1815542 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGC-G
* *
1815562 AAATGGCTATCGCAATGCG
1 AAATGACTATCGCAACGCG
**
1815581 AAATGAAAATCGCAA--CG
1 AAATGACTATCGCAACGCG
*
1815598 ACAA--A--ATCGCAATGCG
1 A-AATGACTATCGCAACGCG
*
1815614 AAATGA-AATCGCAACGCG
1 AAATGACTATCGCAACGCG
** *
1815632 AAATGAAAATCGCAATGCG
1 AAATGACTATCGCAACGCG
1815651 A
1 A
1815652 TTTGTGTTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.09
15 2 0.03
16 4 0.05
17 4 0.05
18 18 0.24
19 25 0.33
20 16 0.21
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (19 bp):
AAATGACTATCGCAACGCG
Found at i:1815585 original size:19 final size:20
Alignment explanation
Indices: 1815542--1815597 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1815532 AGCAACACGA
1815542 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
1815562 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
1815581 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
1815598 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:1815643 original size:19 final size:19
Alignment explanation
Indices: 1815570--1815651 Score: 104
Period size: 19 Copynumber: 4.6 Consensus size: 19
1815560 GGAAATGGCT
1815570 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1815589 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
1815603 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
1815621 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1815640 ATCGCAATGCGA
1 ATCGCAATGCGA
1815652 TTTGTGTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 18 0.34
19 20 0.38
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1815683 original size:14 final size:14
Alignment explanation
Indices: 1815664--1815753 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
1815654 TGTGTTTCGT
1815664 GTTGCGATTTTGTC
1 GTTGCGATTTTGTC
*
1815678 GTTGCGATTTCATTTC
1 GTTGCGATTT--TGTC
1815694 GCATTGCGATTTTGTC
1 G--TTGCGATTTTGTC
*
1815710 GTTGCGATTTTCATTTC
1 GTTGCGA-TTT--TGTC
1815727 GCATTGCGATTTTGTC
1 G--TTGCGATTTTGTC
*
1815743 GTTGCAATTTT
1 GTTGCGATTTT
1815754 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 25 0.40
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
GTTGCGATTTTGTC
Found at i:1815727 original size:33 final size:33
Alignment explanation
Indices: 1815665--1815769 Score: 194
Period size: 33 Copynumber: 3.2 Consensus size: 33
1815655 GTGTTTCGTG
1815665 TTGCGATTTTGTCGTTGCGA-TTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1815697 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
*
1815730 TTGCGATTTTGTCGTTGCAATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1815763 TTGCGAT
1 TTGCGAT
1815770 AGCCATTTCC
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 20 0.28
33 51 0.72
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
Found at i:1815788 original size:20 final size:19
Alignment explanation
Indices: 1815754--1815809 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
1815744 TTGCAATTTT
*
1815754 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1815773 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1815793 TATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1815810 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1817699 original size:14 final size:14
Alignment explanation
Indices: 1817680--1817715 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1817670 ATTGTTTAAT
1817680 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1817694 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1817708 TGATTTGT
1 TGATTTGT
1817716 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1817861 original size:14 final size:14
Alignment explanation
Indices: 1817842--1817895 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
1817832 GAAACTGACT
1817842 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
1817856 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
1817875 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
1817889 ATCGCAA
1 ATCGCAA
1817896 TGTGATTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:1817888 original size:19 final size:19
Alignment explanation
Indices: 1817852--1817888 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1817842 ATCGCAACGA
* *
1817852 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
1817871 GAAAATCGCAACGAGAAA
1 GAAAATCGCAACGAGAAA
1817889 ATCGCAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:1818006 original size:20 final size:20
Alignment explanation
Indices: 1817926--1818011 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
1817916 CGATTTTCTA
1817926 GTTGCGATAGCCATTTTC-C
1 GTTGCGATAGCCATTTTCGC
*** *
1817945 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
1817965 ATTGCGATAGCCATTTTTGC
1 GTTGCGATAGCCATTTTCGC
1817985 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
1818005 GTTGCGA
1 GTTGCGA
1818012 ATTCCCCATT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
19 14 0.27
20 38 0.73
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:1818249 original size:20 final size:20
Alignment explanation
Indices: 1818224--1818273 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1818214 TTGAAGATGA
1818224 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
*** *
1818244 TTGCGAAAGTCATAATCTCG
1 TTGCGATTTTCAGAATCTCG
1818264 TTGCGATTTT
1 TTGCGATTTT
1818274 GTATTATCTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:1818330 original size:21 final size:20
Alignment explanation
Indices: 1818304--1818351 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1818294 TCAGTATCGT
*
1818304 ATTGCGATTTTCCAAATTCGC
1 ATTGCGA-TTTACAAATTCGC
**
1818325 ATTGCGATTTACTTATTCGC
1 ATTGCGATTTACAAATTCGC
1818345 ATTGCGA
1 ATTGCGA
1818352 ATTAGGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTGCGATTTACAAATTCGC
Found at i:1818567 original size:12 final size:12
Alignment explanation
Indices: 1818548--1818581 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1818538 CTCTCCGGCG
1818548 ACATCCGTTCCT
1 ACATCCGTTCCT
*
1818560 ATATCCGTTCCT
1 ACATCCGTTCCT
1818572 ACATCC-TTCC
1 ACATCCGTTCC
1818582 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:1819163 original size:24 final size:24
Alignment explanation
Indices: 1819136--1819189 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1819126 GTATTCGAAA
*
1819136 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1819160 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1819184 TTTGAT
1 TTTGAT
1819190 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1819381 original size:12 final size:12
Alignment explanation
Indices: 1819364--1819388 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1819354 ATATAATCCT
1819364 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1819376 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1819388 G
1 G
1819389 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1821702 original size:33 final size:33
Alignment explanation
Indices: 1821660--1821786 Score: 195
Period size: 33 Copynumber: 3.8 Consensus size: 33
1821650 GGAAATTACT
1821660 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1821693 ATCGCAATGCGAAATGAAAATCGCAAC-ACTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGA
* *
1821725 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1821759 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1821787 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
32 2 0.02
33 81 0.95
34 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1821767 original size:66 final size:66
Alignment explanation
Indices: 1821661--1821785 Score: 241
Period size: 66 Copynumber: 1.9 Consensus size: 66
1821651 GAAATTACTA
1821661 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACACTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACACTAAT
1821726 T
66 T
*
1821727 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAAC
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAAC
1821786 GCGAATTTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACACTAAT
T
Found at i:1821968 original size:14 final size:14
Alignment explanation
Indices: 1821949--1821985 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1821939 CATCAATTAA
1821949 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1821963 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1821977 ACAAATCAA
1 ACAAATCAA
1821986 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1823397 original size:42 final size:41
Alignment explanation
Indices: 1823338--1823510 Score: 152
Period size: 42 Copynumber: 4.1 Consensus size: 41
1823328 GTGAATCGGG
* *
1823338 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
1823380 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
1823422 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
1823464 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
1823506 CTCTT
1 CTCTT
1823511 CAATGATAGG
Statistics
Matches: 102, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
41 8 0.08
42 86 0.84
43 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:1823404 original size:21 final size:21
Alignment explanation
Indices: 1823338--1823404 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1823328 GTGAATCGGG
*
1823338 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1823358 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1823380 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1823401 CTCT
1 CTCT
1823405 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1823479 original size:84 final size:84
Alignment explanation
Indices: 1823368--1823543 Score: 343
Period size: 84 Copynumber: 2.1 Consensus size: 84
1823358 CCTCTTCAAC
1823368 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
*
1823433 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGCACTCTTGAGG
1823452 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1823517 TAGGAGTGCACTCTTGAGG
66 TAGGAGTGCACTCTTGAGG
1823536 GATGACAG
1 GATGACAG
1823544 GCGAGTCGGG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
TAGGAGTGCACTCTTGAGG
Found at i:1823530 original size:42 final size:42
Alignment explanation
Indices: 1823393--1823540 Score: 179
Period size: 42 Copynumber: 3.5 Consensus size: 42
1823383 TTGAACGGTG
*
1823393 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
1 GGAGTGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
* * * * * * * *
1823435 GGAGTGGACTCTTGAGGGATGACAGTGGCCTCTTGAACGGTG
1 GGAGTGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
*
1823477 GGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
1 GGAGTGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
* * *
1823519 GGAGTGCACTCTTGAGGGATGA
1 GGAGTGGACTCTCGAGGAATGA
1823541 CAGGCGAGTC
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (42 bp):
GGAGTGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGATA
Found at i:1823872 original size:93 final size:91
Alignment explanation
Indices: 1823762--1823946 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 91
1823752 ATTTCAAACT
* *
1823762 TTCAACCAAAAGAC-AAA-ATAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTA
1823825 GCAGAATTGGCAGCAACCGAATAAATTTAC
62 GCAGAATTGGCAGCAACCGAATAAATTTAC
1823855 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
*
1823920 TATTGGCAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
1823946 T
1 T
1823947 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 42 0.48
93 14 0.16
94 3 0.03
95 28 0.32
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:1825664 original size:20 final size:19
Alignment explanation
Indices: 1825633--1825693 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
1825623 TCTTTTGGTT
1825633 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1825652 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1825673 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
1825692 GA
1 GA
1825694 GAATCGTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1825716 original size:33 final size:33
Alignment explanation
Indices: 1825658--1825743 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
1825648 ACGAGATAAT
*
1825658 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATAACTATCGCAACGA
* *
1825692 GAGAATCGTAACGCGAAATAACTATGGCAACGA
1 GAGAATCGCAACGCGAAATAACTATCGCAACGA
1825725 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
1825744 GAAAATCGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 35 0.73
34 13 0.27
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATAACTATCGCAACGA
Found at i:1825788 original size:19 final size:19
Alignment explanation
Indices: 1825755--1825799 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1825745 AAAATCGCAA
*
1825755 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1825774 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1825793 TACGATT
1 TGCGATT
1825800 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:1826377 original size:20 final size:20
Alignment explanation
Indices: 1826352--1826404 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1826342 GCGCTATGTA
*
1826352 AATCGCGTTGTGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
1826372 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
1826392 TATCTCGTTGCGA
1 AATCGCGTTGCGA
1826405 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:1832466 original size:325 final size:325
Alignment explanation
Indices: 1831876--1832519 Score: 1243
Period size: 325 Copynumber: 2.0 Consensus size: 325
1831866 TATGTTATAA
1831876 ACCGAGTAATGATTAGGCAAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCT
1 ACCGAGTAATGATTAGGCAAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCT
1831941 AATATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACTGTAAAGAGAATCT
66 AATATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACTGTAAAGAGAATCT
1832006 TGGCAAATTTGATGCTAAAAGTGATGAAAGAATTTTTTTGGGTTATTCCTTAAATTCTAAAGCTT
131 TGGCAAATTTGATGCTAAAAGTGATGAAAGAATTTTTTTGGGTTATTCCTTAAATTCTAAAGCTT
*
1832071 ATTGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAGTCTATACATGTTATTTTCGATGATAAT
196 ATCGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAGTCTATACATGTTATTTTCGATGATAAT
*
1832136 CCCCTTTCGAGGAAGGATTCTTGTGTGAATGATTATGTAGGTATTGTATTAACAAATGACGTCAG
261 CCCCTTCCGAGGAAGGATTCTTGTGTGAATGATTATGTAGGTATTGTATTAACAAATGACGTCAG
*
1832201 ACCGAGTAATGATTAGGCAAATTTTAAATAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCT
1 ACCGAGTAATGATTAGGCAAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCT
*
1832266 AATATTAGTTATTTTCATCCTTTTGGATGTAAATTTTTTGTTTTAAACAACTGTAAAGAGAATCT
66 AATATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACTGTAAAGAGAATCT
1832331 TGGCAAATTTGATGCTAAAAGTGATGAAAGAATTTTTTTGGGTTATTCCTTAAATTCTAAAGCTT
131 TGGCAAATTTGATGCTAAAAGTGATGAAAGAATTTTTTTGGGTTATTCCTTAAATTCTAAAGCTT
*
1832396 ATCGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAGTCTATACATGTTATTTTTGATGATAAT
196 ATCGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAGTCTATACATGTTATTTTCGATGATAAT
1832461 CCCCTTCCGAGGAAGGATTCTTGTGTGAATGATTATGTAGGTATTGTATTAACAAATGA
261 CCCCTTCCGAGGAAGGATTCTTGTGTGAATGATTATGTAGGTATTGTATTAACAAATGA
1832520 TGTTAGACAT
Statistics
Matches: 314, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
325 314 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (325 bp):
ACCGAGTAATGATTAGGCAAATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCT
AATATTAGTTATTTTCATCCTTTTGGATGTAAATGTTTTGTTTTAAACAACTGTAAAGAGAATCT
TGGCAAATTTGATGCTAAAAGTGATGAAAGAATTTTTTTGGGTTATTCCTTAAATTCTAAAGCTT
ATCGAGTATTTAATAAAAGAAATTTAGTTGTAGAAGAGTCTATACATGTTATTTTCGATGATAAT
CCCCTTCCGAGGAAGGATTCTTGTGTGAATGATTATGTAGGTATTGTATTAACAAATGACGTCAG
Found at i:1834590 original size:23 final size:22
Alignment explanation
Indices: 1834537--1834619 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
1834527 TTGTGCAGGA
1834537 GGTATCGATACCCCCTTAAATG
1 GGTATCGATACCCCCTTAAATG
* * *
1834559 GGTACCGATACCCACTTTGAATG
1 GGTATCGATACCC-CCTTAAATG
*
1834582 TGTATCGATA-CCCCTATAAA-G
1 GGTATCGATACCCCCT-TAAATG
*
1834603 GGTA-CTGATGCCCCCTT
1 GGTATC-GATACCCCCTT
1834620 TGGGTTCTAG
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 10 0.21
22 22 0.46
23 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (22 bp):
GGTATCGATACCCCCTTAAATG
Found at i:1838878 original size:9 final size:9
Alignment explanation
Indices: 1838864--1838895 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1838854 TTTTAGCTTA
1838864 AAAGTTGGC
1 AAAGTTGGC
1838873 AAAGTT-G-
1 AAAGTTGGC
1838880 AAAGTTGGC
1 AAAGTTGGC
1838889 AAAGTTG
1 AAAGTTG
1838896 ACATCTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.29
8 2 0.10
9 13 0.62
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (9 bp):
AAAGTTGGC
Found at i:1838885 original size:16 final size:16
Alignment explanation
Indices: 1838864--1838896 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1838854 TTTTAGCTTA
1838864 AAAGTTGGCAAAGTTG
1 AAAGTTGGCAAAGTTG
1838880 AAAGTTGGCAAAGTTG
1 AAAGTTGGCAAAGTTG
1838896 A
1 A
1838897 CATCTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.30, T:0.24
Consensus pattern (16 bp):
AAAGTTGGCAAAGTTG
Found at i:1838986 original size:34 final size:34
Alignment explanation
Indices: 1838897--1838986 Score: 137
Period size: 33 Copynumber: 2.7 Consensus size: 34
1838887 GCAAAGTTGA
1838897 CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
1 CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
* * *
1838931 CAT-ATTGGTTGGTAGCTAACTTATTGGAAAATT
1 CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
*
1838964 CATCTTTGGTAGGTGGCCAACTT
1 CATCTTTGGTTGGTGGCCAACTT
1838987 TGCACATGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 30 0.62
34 18 0.38
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (34 bp):
CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
Found at i:1842532 original size:9 final size:9
Alignment explanation
Indices: 1842520--1842567 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
1842510 GTTTGGCTTG
1842520 AAAGTTGGC
1 AAAGTTGGC
1842529 AAAGTT-G-
1 AAAGTTGGC
1842536 AAAGTTGGC
1 AAAGTTGGC
*
1842545 ATAGTT-G-
1 AAAGTTGGC
1842552 AAAGTTGGC
1 AAAGTTGGC
1842561 AAAGTTG
1 AAAGTTG
1842568 ACATCTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 11 0.33
8 4 0.12
9 18 0.55
ACGTcount: A:0.35, C:0.06, G:0.31, T:0.27
Consensus pattern (9 bp):
AAAGTTGGC
Found at i:1842538 original size:16 final size:16
Alignment explanation
Indices: 1842517--1842568 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
1842507 TATGTTTGGC
1842517 TTGAAAGTTGGCAAAG
1 TTGAAAGTTGGCAAAG
*
1842533 TTGAAAGTTGGCATAG
1 TTGAAAGTTGGCAAAG
1842549 TTGAAAGTTGGCAAAG
1 TTGAAAGTTGGCAAAG
1842565 TTGA
1 TTGA
1842569 CATCTTTGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.31, T:0.29
Consensus pattern (16 bp):
TTGAAAGTTGGCAAAG
Found at i:1842612 original size:33 final size:34
Alignment explanation
Indices: 1842569--1842658 Score: 137
Period size: 33 Copynumber: 2.7 Consensus size: 34
1842559 GCAAAGTTGA
*
1842569 CATCTTTGGTTGGTGGCCAACTTATTGGAAATTT
1 CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
* *
1842603 CATC-TTGGTTGGTAGTCAACTTATTGGAAAATT
1 CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
*
1842636 CATCTTTGGTAGGTGGCCAACTT
1 CATCTTTGGTTGGTGGCCAACTT
1842659 TGCACATGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
33 30 0.61
34 19 0.39
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (34 bp):
CATCTTTGGTTGGTGGCCAACTTATTGGAAAATT
Found at i:1844138 original size:41 final size:41
Alignment explanation
Indices: 1844104--1844187 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 41
1844094 ATATAAATAG
* *
1844104 AAAT-AAATTTTTAATAGAAACTTAATTAATAATATTTGAA
1 AAATGAAATTTTTAATAGAAACCTAATTAATAATATATGAA
** *
1844144 AAATGGCATTTTTAATAGAAACCTAATTAATAATATTTGAA
1 AAATGAAATTTTTAATAGAAACCTAATTAATAATATATGAA
1844185 AAA
1 AAA
1844188 CGGCTTCGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 4 0.10
41 36 0.90
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (41 bp):
AAATGAAATTTTTAATAGAAACCTAATTAATAATATATGAA
Found at i:1845089 original size:19 final size:19
Alignment explanation
Indices: 1845065--1845115 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1845055 AAATGACCAA
*
1845065 CAAATTTGCAACGCGATCT
1 CAAATTTGCAACGCGAACT
*
1845084 CAAATTCGCAACGCGAACT
1 CAAATTTGCAACGCGAACT
*
1845103 CTAATTTCGCAAC
1 CAAATTT-GCAAC
1845116 CCAGTTTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (19 bp):
CAAATTTGCAACGCGAACT
Found at i:1845199 original size:20 final size:20
Alignment explanation
Indices: 1845174--1845212 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1845164 CCAATTTCGC
*
1845174 AACGCGAATATGTAAATCGA
1 AACGCGAATATATAAATCGA
*
1845194 AACGCGAATTTATAAATCG
1 AACGCGAATATATAAATCG
1845213 CAACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (20 bp):
AACGCGAATATATAAATCGA
Found at i:1845245 original size:20 final size:20
Alignment explanation
Indices: 1845222--1845272 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1845212 GCAACATAAA
** *
1845222 AGTCAAATTCGCAATGCGAT
1 AGTCAAATTCAAAACGCGAT
1845242 AGTCAAATTCAAAACGCGAT
1 AGTCAAATTCAAAACGCGAT
1845262 AGTCAAATTCA
1 AGTCAAATTCA
1845273 CAACACAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (20 bp):
AGTCAAATTCAAAACGCGAT
Found at i:1845285 original size:20 final size:20
Alignment explanation
Indices: 1845213--1845296 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 20
1845203 TTATAAATCG
* *
1845213 CAACATAAAAGTCAAATTCG
1 CAACACAAAAGTCAAATTCA
** * *
1845233 CAATGCGATAGTCAAATTCA
1 CAACACAAAAGTCAAATTCA
* * * *
1845253 AAACGCGATAGTCAAATTCA
1 CAACACAAAAGTCAAATTCA
*
1845273 CAACACAAAAGTCAAATTTA
1 CAACACAAAAGTCAAATTCA
1845293 CAAC
1 CAAC
1845297 TCGGAATTTC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.20
Consensus pattern (20 bp):
CAACACAAAAGTCAAATTCA
Found at i:1845310 original size:21 final size:19
Alignment explanation
Indices: 1845284--1845336 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1845274 AACACAAAAG
*
1845284 TCAAATTTACAACTCGGAATT
1 TCAAATTCACAACT--GAATT
*
1845305 TCAAATTCGCAACTGAATT
1 TCAAATTCACAACTGAATT
*
1845324 TCAAATTCGCAAC
1 TCAAATTCACAAC
1845337 ACGAATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (19 bp):
TCAAATTCACAACTGAATT
Found at i:1845324 original size:19 final size:19
Alignment explanation
Indices: 1845300--1845336 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1845290 TTACAACTCG
1845300 GAATTTCAAATTCGCAACT
1 GAATTTCAAATTCGCAACT
1845319 GAATTTCAAATTCGCAAC
1 GAATTTCAAATTCGCAAC
1845337 ACGAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (19 bp):
GAATTTCAAATTCGCAACT
Found at i:1845344 original size:20 final size:19
Alignment explanation
Indices: 1845300--1845344 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
1845290 TTACAACTCG
*
1845300 GAATTTCAAATTCGCAACT
1 GAATTTCAAATTCGCAACC
1845319 GAATTTCAAATTCGCAACAC
1 GAATTTCAAATTCGCAAC-C
1845339 GAATTT
1 GAATTT
1845345 AGTTTTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (19 bp):
GAATTTCAAATTCGCAACC
Found at i:1846097 original size:12 final size:12
Alignment explanation
Indices: 1846076--1846109 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1846066 ACCACATTTC
*
1846076 CAATACCAAACA
1 CAATATCAAACA
1846088 CAATATCAAACA
1 CAATATCAAACA
*
1846100 CAATCTCAAA
1 CAATATCAAA
1846110 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1846262 original size:24 final size:24
Alignment explanation
Indices: 1846235--1846288 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1846225 GTATTCGAAA
1846235 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1846259 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1846283 TTTGAT
1 TTTGAT
1846289 GATGTAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1848539 original size:6 final size:6
Alignment explanation
Indices: 1848528--1848562 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1848518 AAGAAAAAGG
* *
1848528 AAATCA AAATCA AAATCG CAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
1848563 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:1848550 original size:18 final size:18
Alignment explanation
Indices: 1848529--1848569 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1848519 AGAAAAAGGA
*
1848529 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCCC
1848547 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
1848565 AATCA
1 AATCA
1848570 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:1848904 original size:20 final size:20
Alignment explanation
Indices: 1848855--1848892 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1848845 ATGTTGCGAT
*
1848855 CAACGCGAAATTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
1848875 CAACGCGAAAGTCAAATT
1 CAACGCGAAAGTCAAATT
1848893 TGTAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:1849111 original size:25 final size:25
Alignment explanation
Indices: 1849073--1849130 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
1849063 AAATCAATTA
*
1849073 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1849098 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1849123 AACATTGT
1 AACATTGT
1849131 ATGTATAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:1849850 original size:60 final size:63
Alignment explanation
Indices: 1849720--1849857 Score: 201
Period size: 64 Copynumber: 2.2 Consensus size: 63
1849710 TTTTAGAAAC
1849720 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAAATTCTTATTTACAAATCAAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAA-CAAAAAAAATTCTTATTTACAAATCAAATTA
* * * **
1849784 AACAAATCAACTTTTACAAATCAATTAATCAA-AAAATAAA-TCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAACAAAAAAAATTCTTATTTACAAATCAAATTA
1849844 AACAAATCAACTTT
1 AACAAATCAACTTT
1849858 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
60 19 0.28
61 12 0.17
62 7 0.10
64 31 0.45
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.30
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAACAACAAAAAAAATTCTTATTTACAAATCAAATTA
Found at i:1851273 original size:21 final size:21
Alignment explanation
Indices: 1851211--1851328 Score: 87
Period size: 21 Copynumber: 5.6 Consensus size: 21
1851201 ATGAATCGGG
* * *
1851211 CTCTTGAACGGTGGGTGGGAC
1 CTCTTGAACGATGGGAGGGGC
*
1851232 CTCTTGAACGATGACGA-GGGC
1 CTCTTGAACGATG-GGAGGGGC
*
1851253 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* * * **
1851274 TTTTTCG-ATGATGATAGGGGC
1 CTCTT-GAACGATGGGAGGGGC
* *
1851295 CTCTTGAACGATAGGAGGCGC
1 CTCTTGAACGATGGGAGGGGC
*
1851316 CTCTTGAATGATG
1 CTCTTGAACGATG
1851329 ATAGGTGCAA
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
20 3 0.04
21 67 0.93
22 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:1851327 original size:42 final size:42
Alignment explanation
Indices: 1851231--1851333 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
1851221 GTGGGTGGGA
* * * * *
1851231 CCTCTTGAACGATGA-CGAGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGATAG-GGGCCTCTTGAACGATAGGAGGCG
* *
1851273 CTTTTTCG-ATGATGATAGGGGCCTCTTGAACGATAGGAGGCG
1 CCTCTT-GAATGATGATAGGGGCCTCTTGAACGATAGGAGGCG
1851315 CCTCTTGAATGATGATAGG
1 CCTCTTGAATGATGATAGG
1851334 TGCAATGGGC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.02
42 46 0.94
43 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCG
Found at i:1851757 original size:21 final size:21
Alignment explanation
Indices: 1851729--1851778 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1851719 ACCATTATCT
*
1851729 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
1851750 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
1851771 TCACGTAA
1 TCACGTAA
1851779 TTCCCCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:1853530 original size:19 final size:21
Alignment explanation
Indices: 1853508--1853550 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1853498 AATCGCAACT
1853508 CGATTTT-A-GTTTCGCGTTG
1 CGATTTTCATGTTTCGCGTTG
*
1853527 CGATTTTCATTTTTCGCGTTG
1 CGATTTTCATGTTTCGCGTTG
1853548 CGA
1 CGA
1853551 ATTTGGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 13 0.62
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (21 bp):
CGATTTTCATGTTTCGCGTTG
Found at i:1853993 original size:20 final size:20
Alignment explanation
Indices: 1853968--1854092 Score: 130
Period size: 20 Copynumber: 6.2 Consensus size: 20
1853958 GCGTAAAACT
1853968 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
1853988 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
1854008 ATTTGACTATCGCATTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
1854028 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GCGTTGCGA
****
1854047 ATTT-ACAATTTCGCAACACGA
1 ATTTGAC--TTTCGCGTTGCGA
1854068 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
1854088 ATTTG
1 ATTTG
1854093 GAAAATCGCA
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
18 2 0.02
19 6 0.07
20 68 0.80
21 7 0.08
22 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:1854166 original size:20 final size:20
Alignment explanation
Indices: 1854116--1854171 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
1854106 CGGTTTACAT
*
1854116 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTAGA
* **
1854136 A-ACTGTATTGCGAAATTAGA
1 ATTC-GCGTTGCGAAATTAGA
1854156 ATTCGCGTTGC-AAATT
1 ATTCGCGTTGCGAAATT
1854172 TGAAGTTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 5
0.69 0.18 0.13
Matches are distributed among these distances:
19 6 0.22
20 20 0.74
21 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTAGA
Found at i:1855773 original size:18 final size:18
Alignment explanation
Indices: 1855750--1855784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1855740 TTTTCCTAGG
1855750 TCGTAAATTAGAAAATTT
1 TCGTAAATTAGAAAATTT
* *
1855768 TCGTAATTTATAAAATT
1 TCGTAAATTAGAAAATT
1855785 AGTGGTGTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (18 bp):
TCGTAAATTAGAAAATTT
Found at i:1856504 original size:17 final size:17
Alignment explanation
Indices: 1856464--1856496 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1856454 TCTAATTTTT
1856464 TGGGGCCCTTGCTATTC
1 TGGGGCCCTTGCTATTC
1856481 TGGGGCCCTTGCTATT
1 TGGGGCCCTTGCTATT
1856497 TCGGGGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.27, G:0.30, T:0.36
Consensus pattern (17 bp):
TGGGGCCCTTGCTATTC
Found at i:1857216 original size:21 final size:21
Alignment explanation
Indices: 1857190--1857245 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1857180 ATTTACCATA
* *
1857190 ATTGCGGCCGTCGCGGGCTCT
1 ATTGCGGCCGTCGCGGACGCT
*
1857211 ATTGCGGCTGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
*
1857232 ATTGCGACCGTCGC
1 ATTGCGGCCGTCGC
1857246 AAGTAACTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.09, C:0.32, G:0.36, T:0.23
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:1858868 original size:6 final size:6
Alignment explanation
Indices: 1858857--1858885 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1858847 CAATCCTCTT
1858857 CTTTTC CTTTTC CTTTTC CTTTTC CTTTT
1 CTTTTC CTTTTC CTTTTC CTTTTC CTTTT
1858886 TCTAGATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTTC
Found at i:1859209 original size:144 final size:144
Alignment explanation
Indices: 1858938--1859329 Score: 409
Period size: 144 Copynumber: 2.7 Consensus size: 144
1858928 GGAACACATT
* ** * * * * ** **
1858938 CACTACAATCCAATTCGTCATCACATCCTCCATCACCACTACTAATTTCACCCACCTCCATCCCA
1 CACTACAATCAAATTCACCTTCACAACATCCATCTCCACTACTACCTTCACCCACCTCCATTTCA
* *
1859003 TC-TTCTCCACTTCAACAAAATTCATCTTCACGACTACCATTACCAGTACTACCTTTACCCACC-
66 TCATT-ACCACTTCAACAAAATTCATCTTCACGACTTCCATTACCAGTACTACCTTTACCCACCT
* *
1859066 TCTATTCCATCTTCTC
130 TC-ATTCCATCATCAC
* * *
1859082 CACTTCAA-CATAATTCACCTTCACAACATTCATCTCCATTACTACCTTCACCCACCTCCATTTC
1 CACTACAATCA-AATTCACCTTCACAACATCCATCTCCACTACTACCTTCACCCACCTCCATTTC
* * * * *
1859146 ATCATTACCACTGCAATC-AAATTCATCTTCGCAACTTCCATCT-CCATTACTA-TTTTCACCCA
65 ATCATTACCACTTCAA-CAAAATTCATCTTCACGACTTCCAT-TACCAGTACTACCTTT-ACCCA
1859208 CCTTCATTCCATCATCAC
127 CCTTCATTCCATCATCAC
* * * * *
1859226 CACTACAATCAAATTCATCTTCGCAACATCCATCTTCACTACTACCCTCACCCACCTCCATTTTA
1 CACTACAATCAAATTCACCTTCACAACATCCATCTCCACTACTACCTTCACCCACCTCCATTTCA
* **
1859291 TTATCCCCACTTCAACAAAATTCATCTTCACGACTTCCA
66 TCATTACCACTTCAACAAAATTCATCTTCACGACTTCCA
1859330 CCTTCATCTT
Statistics
Matches: 203, Mismatches: 37, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
143 5 0.02
144 190 0.94
145 8 0.04
ACGTcount: A:0.28, C:0.39, G:0.02, T:0.31
Consensus pattern (144 bp):
CACTACAATCAAATTCACCTTCACAACATCCATCTCCACTACTACCTTCACCCACCTCCATTTCA
TCATTACCACTTCAACAAAATTCATCTTCACGACTTCCATTACCAGTACTACCTTTACCCACCTT
CATTCCATCATCAC
Found at i:1859335 original size:72 final size:72
Alignment explanation
Indices: 1858984--1859336 Score: 345
Period size: 72 Copynumber: 4.9 Consensus size: 72
1858974 CACTACTAAT
* * * * * *
1858984 TTCACCCACCTCCATCCCATCTTCTCCACTTCAACAAAATTCATCTTCACGACTACCAT-TACCA
1 TTCACCCACCTCCATTCCATCATCACCACTTCAACAAAATTCATCTTCACAACTTCCATCT-TCA
*
1859048 GTACTACC
65 TTACTACC
* * * * * * *
1859056 TTTACCCACCTCTATTCCATCTTCTCCACTTCAACATAATTCACCTTCACAACATT-CATCTCCA
1 TTCACCCACCTCCATTCCATCATCACCACTTCAACAAAATTCATCTTCACAAC-TTCCATCTTCA
1859120 TTACTACC
65 TTACTACC
* * * * *
1859128 TTCACCCACCTCCATTTCATCATTACCACTGCAATC-AAATTCATCTTCGCAACTTCCATCTCCA
1 TTCACCCACCTCCATTCCATCATCACCACTTCAA-CAAAATTCATCTTCACAACTTCCATCTTCA
**
1859192 TTACTATT
65 TTACTACC
* * * *
1859200 TTCACCCACCTTCATTCCATCATCACCACTACAATC-AAATTCATCTTCGCAACATCCATCTTCA
1 TTCACCCACCTCCATTCCATCATCACCACTTCAA-CAAAATTCATCTTCACAACTTCCATCTTCA
*
1859264 CTACTACC
65 TTACTACC
* ** * * * *
1859272 CTCACCCACCTCCATTTTATTATCCCCACTTCAACAAAATTCATCTTCACGACTTCCACCTTCAT
1 TTCACCCACCTCCATTCCATCATCACCACTTCAACAAAATTCATCTTCACAACTTCCATCTTCAT
1859337 CTTTACCTTC
Statistics
Matches: 235, Mismatches: 41, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
71 3 0.01
72 229 0.97
73 3 0.01
ACGTcount: A:0.27, C:0.39, G:0.02, T:0.32
Consensus pattern (72 bp):
TTCACCCACCTCCATTCCATCATCACCACTTCAACAAAATTCATCTTCACAACTTCCATCTTCAT
TACTACC
Found at i:1864315 original size:2 final size:2
Alignment explanation
Indices: 1864308--1864336 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1864298 TCCTTTTTCC
1864308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1864337 GTGCGCGCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1873080 original size:38 final size:38
Alignment explanation
Indices: 1873027--1873162 Score: 163
Period size: 38 Copynumber: 3.6 Consensus size: 38
1873017 ATATAGTATA
1873027 GTTTTTGAAAA-ATATAATATATAGTTTTTAGAAAACG
1 GTTTTTGAAAATATATAATATATAGTTTTTAGAAAACG
* * *
1873064 GTTTTTGAAAACATATAATATATACTTTTTA-AAAATTG
1 GTTTTTGAAAATATATAATATATAGTTTTTAGAAAA-CG
* *
1873102 GTTTTTGAAAATATATATTATATAG-TTTT-GAAAACA
1 GTTTTTGAAAATATATAATATATAGTTTTTAGAAAACG
* *
1873138 ATTTTTGAATATATATATATATATA
1 GTTTTTGAAAATATATA-ATATATA
1873163 TATATATATA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
36 15 0.18
37 29 0.34
38 41 0.48
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.45
Consensus pattern (38 bp):
GTTTTTGAAAATATATAATATATAGTTTTTAGAAAACG
Found at i:1873153 original size:2 final size:2
Alignment explanation
Indices: 1873146--1873184 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1873136 CAATTTTTGA
1873146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1873185 GTTTTGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1873224 original size:37 final size:36
Alignment explanation
Indices: 1873172--1873337 Score: 174
Period size: 37 Copynumber: 4.5 Consensus size: 36
1873162 ATATATATAT
* * *
1873172 ATATATATATATAGTTTTGAAAACACATTTTTGAAAAT
1 ATATAT-TATATAGTTTTTAAAATA-ATTTTTGAAAAC
* *
1873210 GTATATTATATAGTTTTTTAAAATAATTTTGGAGAAAC
1 ATATATTATATAG-TTTTTAAAATAATTTTTGA-AAAC
* * **
1873248 TTATAATATATAGTTTTTAAAA-ACGGTTTTGAAAAC
1 ATATATTATATAGTTTTTAAAATA-ATTTTTGAAAAC
*
1873284 ATATAATATATAGTTTTTAAAATAA-TTTTGAAAAC
1 ATATATTATATAGTTTTTAAAATAATTTTTGAAAAC
*
1873319 ATATATTATATATTTTTTA
1 ATATATTATATAGTTTTTA
1873338 TTTTTAGTAT
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
35 27 0.25
36 26 0.24
37 29 0.26
38 28 0.25
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (36 bp):
ATATATTATATAGTTTTTAAAATAATTTTTGAAAAC
Found at i:1873240 original size:36 final size:36
Alignment explanation
Indices: 1873172--1873337 Score: 167
Period size: 38 Copynumber: 4.6 Consensus size: 36
1873162 ATATATATAT
* *
1873172 ATATATATATATAG-TTTTGAAAACACATTTTTGAAAAT
1 ATATAT-TATATAGTTTTTTAAAACA-A-TTTTGAAAAC
* *
1873210 GTATATTATATAGTTTTTTAAAATAATTTTGGAGAAAC
1 ATATATTATATAGTTTTTTAAAACAATTTT-GA-AAAC
* * * **
1873248 TTATAATATATAGTTTTTAAAAACGGTTTTGAAAAC
1 ATATATTATATAGTTTTTTAAAACAATTTTGAAAAC
* *
1873284 ATATAATATATAG-TTTTTAAAATAATTTTGAAAAC
1 ATATATTATATAGTTTTTTAAAACAATTTTGAAAAC
1873319 ATATATTATATA-TTTTTTA
1 ATATATTATATAGTTTTTTA
1873338 TTTTTAGTAT
Statistics
Matches: 108, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
35 35 0.32
36 20 0.19
37 12 0.11
38 41 0.38
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (36 bp):
ATATATTATATAGTTTTTTAAAACAATTTTGAAAAC
Found at i:1883018 original size:20 final size:20
Alignment explanation
Indices: 1882995--1883039 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1882985 TCAAAATTTC
* *
1882995 ATTTTTCTTTTCGAAATCCA
1 ATTTTGCTTTTCAAAATCCA
*
1883015 ATTTTGCTTTTCAAAATGCA
1 ATTTTGCTTTTCAAAATCCA
1883035 ATTTT
1 ATTTT
1883040 ACTGTGTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTTTGCTTTTCAAAATCCA
Found at i:1883176 original size:186 final size:185
Alignment explanation
Indices: 1882863--1883234 Score: 636
Period size: 186 Copynumber: 2.0 Consensus size: 185
1882853 TTTTTAAACA
* *
1882863 TGATAAATTGTTTTGAGAAATTATTTCTTTTTCTTTTGTTAAGCATTCAAGCTTAACTTTCAAAT
1 TGATAAATTGTTTTGAGAAATTATTTCTTTTTATTTTATTAAGCATTCAAGCTTAACTTTCAAAT
* *
1882928 TAAAAATTTCCTTTTCTAAATCATTGATTTTGATTTTTGAAATCTCAAAACCATTGTTCAAAATT
66 TAAAAATTTCATTTTCTAAATCACTGATTTTGATTTTTGAAATCTCAAAACCATTGTTCAAAATT
* * * *
1882993 TCATTTTTCTTTTCGAAATCCAATTTTGCTTTTCAAAATGCAATTTTACTGTGTC
131 TCATTTTGCTTTTCGAAATCCAATTTTGCTTTTCAAAATCCAATTTAACTATGTC
1883048 TGATAAATTGTTTTGAGAAATTATTTCTTTTTTATTTTATTAAGCATTCAAGCTTAACTTTCAAA
1 TGATAAATTGTTTTGAGAAATTATTTC-TTTTTATTTTATTAAGCATTCAAGCTTAACTTTCAAA
*
1883113 TTAAAAATTTCATTTTCTAAATCACTGATTTTGATTTTTGAAATCTCAAAATCATTGTTCAAAAT
65 TTAAAAATTTCATTTTCTAAATCACTGATTTTGATTTTTGAAATCTCAAAACCATTGTTCAAAAT
* *
1883178 TTCATTTTGCTTTTTGAAATCCAATTTTTCTTTTCAAAATCCAATTTAACTATGTC
130 TTCATTTTGCTTTTCGAAATCCAATTTTGCTTTTCAAAATCCAATTTAACTATGTC
1883234 T
1 T
1883235 AATTGATTTC
Statistics
Matches: 175, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
185 27 0.15
186 148 0.85
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (185 bp):
TGATAAATTGTTTTGAGAAATTATTTCTTTTTATTTTATTAAGCATTCAAGCTTAACTTTCAAAT
TAAAAATTTCATTTTCTAAATCACTGATTTTGATTTTTGAAATCTCAAAACCATTGTTCAAAATT
TCATTTTGCTTTTCGAAATCCAATTTTGCTTTTCAAAATCCAATTTAACTATGTC
Found at i:1883204 original size:20 final size:20
Alignment explanation
Indices: 1883181--1883224 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1883171 TCAAAATTTC
**
1883181 ATTTTGCTTTTTGAAATCCA
1 ATTTTGCTTTTCAAAATCCA
*
1883201 ATTTTTCTTTTCAAAATCCA
1 ATTTTGCTTTTCAAAATCCA
1883221 ATTT
1 ATTT
1883225 AACTATGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTTTGCTTTTCAAAATCCA
Found at i:1894038 original size:126 final size:125
Alignment explanation
Indices: 1893813--1894042 Score: 279
Period size: 126 Copynumber: 1.8 Consensus size: 125
1893803 GATGAATTTA
*
1893813 ATAATATGATTGTGGGTTCATCAAGGGCATTGGATGCTGCCCATGAGGTAAATGCTCTTGAGGAT
1 ATAATATGATTGTGGGTTCAT-AAGGGCATTGGATGCTGCCCACGAGGTAAATGCTCTTGAGGAT
** * *
1893878 TCTTTCACGCCTTTGGACAGGCCATTTAATAAGGGCATTATAAACGTGGGTGAGGATTTTT
65 TCTTTCACGCCTTCAGACAGGCCATTAAACAAGGGCATTATAAACGTGGGTGAGGATTTTT
* *
1893939 ATAATATGCA-TGTGGGTTCAGT-AGTGGCATTGGATGCTGCTCACGAGGTAAATGCTTTTGAGG
1 ATAATATG-ATTGTGGGTTCA-TAAG-GGCATTGGATGCTGCCCACGAGGTAAATGCTCTTGAGG
* * * *
1894002 -GTCATCTT-ACGCCTTCAGATAGGTCGTTAAACAAGGGCATT
63 ATTC-T-TTCACGCCTTCAGACAGGCCATTAAACAAGGGCATT
1894043 GTCGTTGGTT
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
125 4 0.05
126 80 0.91
127 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (125 bp):
ATAATATGATTGTGGGTTCATAAGGGCATTGGATGCTGCCCACGAGGTAAATGCTCTTGAGGATT
CTTTCACGCCTTCAGACAGGCCATTAAACAAGGGCATTATAAACGTGGGTGAGGATTTTT
Found at i:1911528 original size:2 final size:2
Alignment explanation
Indices: 1911517--1911556 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1911507 AAAAATTAAA
1911517 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1911557 CTACTCGATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1913842 original size:32 final size:32
Alignment explanation
Indices: 1913801--1913884 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
1913791 TTCACATCAG
* *
1913801 GATGTTGAATCCCCGAAGATGCC-CTAATATTC
1 GATGTTGAATCCCCAAAGATGCCTC-AACATTC
* *
1913833 GATGTTGAATCTCCAAAGATGCCTCAACATTT
1 GATGTTGAATCCCCAAAGATGCCTCAACATTC
**
1913865 GATGTTGAATCTTCAAAGAT
1 GATGTTGAATCCCCAAAGAT
1913885 ACCCTCATTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 45 0.98
33 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCCCCAAAGATGCCTCAACATTC
Found at i:1919765 original size:32 final size:32
Alignment explanation
Indices: 1919725--1919786 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1919715 GAAAAATGAC
* *
1919725 ACAAACAAAAGAAAATAAATAAGTTAGTATGG
1 ACAAACAAAACAAAAGAAATAAGTTAGTATGG
*
1919757 ACAAACAAAACAAAAGAAATTAGTTAGTAT
1 ACAAACAAAACAAAAGAAATAAGTTAGTAT
1919787 AGGTAAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.19
Consensus pattern (32 bp):
ACAAACAAAACAAAAGAAATAAGTTAGTATGG
Found at i:1927356 original size:3 final size:3
Alignment explanation
Indices: 1927348--1927385 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1927338 ATAACACTAT
1927348 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1927386 TATTTTGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1930725 original size:6 final size:7
Alignment explanation
Indices: 1930708--1930734 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1930698 AAATAAATCA
1930708 AAAAAAG
1 AAAAAAG
1930715 AAAAAAG
1 AAAAAAG
1930722 AAAAAAG
1 AAAAAAG
1930729 AAAAAA
1 AAAAAA
1930735 TACAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1930765 original size:32 final size:30
Alignment explanation
Indices: 1930688--1930776 Score: 83
Period size: 32 Copynumber: 2.9 Consensus size: 30
1930678 AATGTTAGAT
* *
1930688 AAAAGATAATAAATAAAT-CAAAAAAAGAA
1 AAAAGATAATAAAAAAATACAATAAAAGAA
* * *
1930717 AAAAGAAAAAAGAAAAAATACAATAAAATAA
1 AAAAGATAATA-AAAAAATACAATAAAAGAA
1930748 AATAAGATAATATAAAAAACTA-AATAAAA
1 AA-AAGATAATA-AAAAAA-TACAATAAAA
1930777 AGGAAGGCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.19
30 6 0.12
31 11 0.23
32 20 0.42
33 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (30 bp):
AAAAGATAATAAAAAAATACAATAAAAGAA
Found at i:1932507 original size:84 final size:84
Alignment explanation
Indices: 1932366--1932542 Score: 246
Period size: 84 Copynumber: 2.1 Consensus size: 84
1932356 CGAGCTCGTC
* *
1932366 AGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCAGAGC
1 AGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCAGAGC
*
1932431 TGAGAGTAGTCGAACACGA
66 TGAGAGTAGTCGAACACAA
* * * * ** *
1932450 AGGTCTTTGGTTAGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGT
1 AGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCAGAGC
* *
1932515 TGAGCGTAGTCGAACTCAA
66 TGAGAGTAGTCGAACACAA
1932534 AGGTCTTTG
1 AGGTCTTTG
1932543 TGTTTCAAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (84 bp):
AGGTCTTTGGTTAGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTCAGAGC
TGAGAGTAGTCGAACACAA
Found at i:1932612 original size:33 final size:33
Alignment explanation
Indices: 1932530--1932657 Score: 188
Period size: 33 Copynumber: 3.9 Consensus size: 33
1932520 GTAGTCGAAC
*
1932530 TCAAAGG-TCTTTGTGTTTCAAGAGAAAC-ATTT
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGA-TT
*
1932562 TCAAAGGTTTTTTTGTGTTTCAAGAGGAACGATT
1 TCAAAGG-TTTTTTGTGTTTCAAGAGAAACGATT
1932596 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
* *
1932629 TCAAAGATTTTTTGTGTTTAAAGAGAAAC
1 TCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1932658 TGTCTCCATG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
32 7 0.08
33 52 0.59
34 28 0.32
35 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (33 bp):
TCAAAGGTTTTTTGTGTTTCAAGAGAAACGATT
Found at i:1932640 original size:67 final size:65
Alignment explanation
Indices: 1932530--1932653 Score: 187
Period size: 67 Copynumber: 1.9 Consensus size: 65
1932520 GTAGTCGAAC
* *
1932530 TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTGTGTTTCAAGAGGAACGAT
1 TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAA-GATTTTTTGTGTTTAAAGAGGAACGAT
1932595 T
65 T
*
1932596 TCAAAGGTTTTTTGTGTTTCAAGAGAAACGA-TTTCAAAGATTTTTTGTGTTTAAAGAG
1 TCAAAGG-TCTTTGTGTTTCAAGAGAAAC-ATTTTCAAAGATTTTTTGTGTTTAAAGAG
1932654 AAACTGTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
66 25 0.47
67 27 0.51
68 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (65 bp):
TCAAAGGTCTTTGTGTTTCAAGAGAAACATTTTCAAAGATTTTTTGTGTTTAAAGAGGAACGATT
Found at i:1932751 original size:21 final size:21
Alignment explanation
Indices: 1932725--1932789 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
1932715 GGAAACTGTC
1932725 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
** *
1932746 TC-A-AGAG---AAA-CCGTC
1 TCAAGAGAGACAAAATTTGTT
1932761 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
1932782 TCAAGAGA
1 TCAAGAGA
1932790 AATTGTCTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 4 0.12
19 4 0.12
20 4 0.12
21 12 0.38
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Done.